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Sema3d
Gene Detail
Symbol

Name
ID
Sema3d
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3D
MGI:1860118
Synonyms
4631426B19Rik
Feature Type
protein coding gene
Genetic Map
Chromosome 5
3.97 cM, cytoband A2
Detailed Genetic Map ± 1 cM


Mapping data(4)
Sequence Map
Chr5:12383166-12588943 bp, + strand
From NCBI annotation of GRCm38

  205778 bp   ±  kb flank

VEGA Genome Browser | Ensembl Genome Browser | UCSC Browser | NCBI Map Viewer


Mouse Genome Browser
Vertebrate
homology
HomoloGene:23664  Vertebrate Homology Class
1 human; 1 mouse; 1 rat; 1 chimpanzee; 1 rhesus macaque; 1 cattle; 1 dog; 1 chicken; 1 western clawed frog; 1 zebrafish

HCOP human homology predictions: SEMA3D
Protein SuperFamily: semaphorin
Gene Tree: Sema3d

Human
homologs
SEMA3D, sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3D
Orthology source: HGNC, HomoloGene

IDs:
NCBI Gene ID: 223117
neXtProt AC: NX_O95025

Human Synonyms: coll-2, Sema-Z2

Human Chr (Location): 7q21.11; chr7:84995192-85186855 (-)  GRCh38.p2

Mutations,
alleles, and
phenotypes
All mutations/alleles(5) : Targeted(5)
Incidental mutations (data from Mutagenetix , APF )
 
Mice homozygous for a knock-out allele exhibit pulmonary vein connection to the right atrium and atrial septal defect.
 
Interactions
Sema3d interacts with 370 markers (Mir1a-1, Mir1a-2, Mir1b, ...)
Gene Ontology
(GO)
classifications
All GO classifications: (4 annotations)
Process cell differentiation, multicellular organismal development, ...
Component extracellular region
External Resources: FuncBase
Expression
Literature Summary: (15 records)
Data Summary: Results (166)    Tissues (30)    Images (23)    Tissue x Stage Matrix (view)
Assay TypeResults
RNA in situ 166
cDNA source data(34)
Other mouse links: Allen Institute   GEO   Expression Atlas
Other vertebrate links: GEISHA SEMA3D ; Xenbase sema3d    NEW 
Molecular
reagents
All nucleic(35) cDNA(34) Primer pair(1)
Microarray probesets(4)
Other database
links
Ensembl Gene Model ENSMUSG00000040254 (Evidence)
Entrez Gene 108151 (Evidence)
UniGene 89313
DFCI TC1581670, TC1593838, TC1599127, TC1641388
DoTS DT.110648143, DT.40153683, DT.40180653, DT.91290089, DT.91327830, DT.94189489, DT.97394214
NIA Mouse Gene Index U005291
Consensus CDS Project CCDS39013.1
International Mouse Phenotyping Consortium Status Sema3d
Sequences
Representative SequencesLengthStrain/SpeciesFlank
genomic 108151 NCBI Gene Model | MGI Sequence Detail 205778 C57BL/6J ±  kb
transcript NM_028882 RefSeq | MGI Sequence Detail 6521 C57BL/6 
polypeptide Q8BH34 UniProt | EBI | MGI Sequence Detail 777 Not Applicable 

For the selected sequences
All sequences(38) RefSeq(2) UniProt(5)
Polymorphisms
SNPs within 2kb(1772 from dbSNP Build 137)
Protein-related
information
ResourceIDDescription
InterPro IPR007110 Immunoglobulin-like domain
InterPro IPR013783 Immunoglobulin-like fold
InterPro IPR003599 Immunoglobulin subtype
InterPro IPR013106 Immunoglobulin V-set
InterPro IPR016201 Plexin-like fold
InterPro IPR027231 Semaphorin
InterPro IPR001627 Semaphorin/CD100 antigen
InterPro IPR015943 WD40/YVTN repeat-like-containing domain
Protein Ontology PR:000014618 semaphorin-3D
Graphical View of Protein Domain Structure
References
(Earliest) J:62530 Tarantino LM, et al., A high-resolution radiation hybrid map of the proximal portion of mouse chromosome 5. Genomics. 2000 May 15;66(1):55-64
(Latest) J:220957 Tian X, et al., Subepicardial endothelial cells invade the embryonic ventricle wall to form coronary arteries. Cell Res. 2013 Sep;23(9):1075-90
All references(44)
Other
accession IDs
MGI:1921595

Contributing Projects:
Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Tumor Biology (MTB), Gene Ontology (GO), MouseCyc
Citing These Resources
Funding Information
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last database update
08/18/2015
MGI 6.0
The Jackson Laboratory